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This page describes the iEEG workflow as of October 2020.
Steps for iEEG Data Files
Click here for Part1 workflow in PDF format.
1. Data is placed on the server in the folder
2. The raw data from the BlackRock system is saved into a set of five files, e.g.
The ".nev" file is the metadata. The ".ns3" and ".ns5" are the voltage electrode recordings.
The ".ns6" file contains the microelectrode data.
These file should be located in a folder corresponding to the recording block number, e.g.
If they are not in such a folder, move them there.
3. These files are converted to one ".mat" file that contains data from all channels, e.g.
4. It is possible for this conversion to happen automatically, for instance, by modifying the stimulus presentation program.
5. If the conversion does not happen automatically, it must be done manually using a one-piece script as followed:
First, open Matlab. Change to the code directory
OR add the code directory to the path:
Second, call the script (Call_convert_code_server_256.m):
The function takes a subj name and block numbers(s), e.g. subj_name ='YBY'; blocknums=[12:23];
6. Alternately (if the script somehow does not work), you can also convert them PURE MANUALLY:
Then save them out:
save(YDJDatafile019_rawData', 'NS3', 'NS5', 'NS6','-v7.3');
7. Next, split the converted .mat file into individual channel files. Each channel has one .mat file after splitting. Use this one-piece code to do the split (/Volumes/ecog/Foster_Lab/CODE/MASTER/BASICS/ecog_rawData2mat.m):
First, check how many channels/electrodes are active in this subject, this can be found in the subject folder (e.g.):
Call the command in matlab:
Where YDJ is the subject code. In this folder, the data is organized by recording blocks. '019' is the block number, and '121' is the channel number.
Now the individual ".mat" files are automatically stored in: /Volumes/ecog/ECoG_Data/YDJDatafile/DATA/019/Indiv_chans
8. LAST STEP:
Copy results of conversion into RAVE directory tree, e.g.
9. Go to RAVE and begin the preprocessing workflow.
Click here for Part2 workflow in PDF format.
Steps for Creating Epoch Files
Click here for Part3 workflow in PDF format.
1. Output from Psychtoolbox log files
one line is
2. Transcribed results from subject responses
This is used to decide what stimulus type each trial is and whether the subject's response was correct or not.
1. Epoch file in the meta subdirectory
Is used with the RAVE automatic photodiode detection script to measure stimulus onset.
This can be combined with the behavioral data to make the epoch_YDJ.csv file using the R script